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The Scientific World Journal
Volume 2014, Article ID 917292, 7 pages
http://dx.doi.org/10.1155/2014/917292
Research Article

Genome-Wide Characterisation of Gene Expression in Rice Leaf Blades at 25°C and 30°C

1China National Rice Research Institute, No. 359, Tiyuchang Road, Hangzhou 310006, China
2iBioinfo Group, Lexington, MA 02421, USA
3School of Life Science, Gwangju Institute of Science and Technology, Gwangju 500-712, Republic of Korea
4Nantong University, Nantong 226001, China

Received 5 August 2013; Accepted 30 September 2013; Published 29 January 2014

Academic Editors: B. Shen, J. Wang, and J. Wang

Copyright © 2014 Zhi-guo E et al. This is an open access article distributed under the Creative Commons Attribution License, which permits unrestricted use, distribution, and reproduction in any medium, provided the original work is properly cited.

Supplementary Material

Supplementary Figure 1. Datasets quality chart. SRR611648 and SRR611649 are two RNA-seq transcriptome datasets from rice leaf blades at 25°C or 30°C that are identified from Gene Expression Omnibus (GEO) under the accession number GSE42096. Ninety quality score bar charts align on the x axis, one for each base pair of read. The Y axis is the quality sore. The yellow box in the bar chart is the area between quartile 1 and quartile 3. The black line is the mean line and the short horizontal red line is the median.

Supplementary Figure 2. A histogram showing the distribution patterns of gene expression in RNA-seq transcriptome samples in rice. Log2(RMKM) represents the number of RPKM (Log2) obtained from analysis of RNA-seq datasets. Frequency represents the number of genes with a defined expression level (RPKM). Red: 25°C; green: 30°C; orange: overlap between 25°C and 30°C.

Supplementary Figure 3. A histogram showing differential expression of genes in rice leaf blades at 25°C and 30°C. “Log2(fold change) 30°C/25°C” represents the number of fold (Log2) of gene expression that is regulated from 25°C to 30°C; “Log(frequency)” represents the number of genes with a defined fold of change in gene expression from 30°C to 25°C. Left panel: the number of genes with increased expression at 25°C. Right panel: the number of genes with increased expression at 30°C.

Table S1: Expressed genes in rice leaf blades at 250C and 300C. Gene: Annotated gene ID; Exon-length: length of the exon; Location: chromosome location; Description: gene description; SRR611648(RPKM): the number of reads at 250C; SRR611649(RPKM): the number of reads at 300C; SRR611648(RPKM+median): the adjusted number of reads at 250C; SRR611649(RPKM+median): the adjusted number of reads at 300C; fldchg(WT): ratio between SRR611649(RPKM+median)/ SRR611648(RPKM+median).

  1. Supplementary Materials